2J41 - JenaLib

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Title :   CRYSTAL STRUCTURE OF STAPHYLOCOCCUS AUREUS GUANYLATE MONOPHOSPHATE KINASE

Authors :   K. El Omari, B. Dhaliwal, M. Lockyer, I. Charles, A. R. Hawkins, D. K. Stammers

Date :   24 Aug 06 (Deposition) - 11 Oct 06 (Release) - 24 Feb 09 (Revision)

Method :   X-RAY DIFFRACTION

Resolution :   1.90

Chains :   Asym. Unit : A,B,C,D
Biol. Unit 1: A,B  (1x)
Biol. Unit 2: C,D  (1x)

Keywords :   Gmp, Gmk, Kinase, Transferase, Atp-Binding, Nucleotide- Binding, Staphylococcus Aureus (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )

Reference :   K. El Omari, B. Dhaliwal, M. Lockyer, I. Charles, A. R. Hawkins, D. K. Stammers
Structure Of Staphylococcus Aureus Guanylate Monophosphate Kinase
Acta Crystallogr. , Sect. F V. 62 949 2006
PubMed-ID: 17012781 | Reference-DOI: 10.1107/S174430910603613X

Molecule 1 - GUANYLATE KINASE
	Chains	:	A, B, C, D
	EC Number	:	2.7.4.8
	Engineered	:	YES
	Expression System	:	ESCHERICHIA COLI
	Expression System Plasmid	:	PET15B
	Expression System Taxid	:	562
	Organism Scientific	:	STAPHYLOCOCCUS AUREUS
	Organism Taxid	:	1280
	Synonym	:	GMP KINASE, STAPHYLOCOCCUS AUREUS GUANYLATE MONOPHOSPHATE KINASE

		1	2	3	4
Asymmetric Unit	:	A	B	C	D
Biological Unit 1 (1x)	:	A	B
Biological Unit 2 (1x)	:			C	D

Summary Information (see also Sequences/Alignments below)

Asymmetric Unit (3, 11)

No.	Name	Count	Type	Full Name
1	5GP	3	Ligand/Ion	GUANOSINE-5'-MONOPHOSPHATE
2	K	3	Ligand/Ion	POTASSIUM ION
3	SO4	5	Ligand/Ion	SULFATE ION

Biological Unit 1 (2, 3)

No.	Name	Count	Type	Full Name
1	5GP	1	Ligand/Ion	GUANOSINE-5'-MONOPHOSPHATE
2	K	-1	Ligand/Ion	POTASSIUM ION
3	SO4	2	Ligand/Ion	SULFATE ION

Biological Unit 2 (2, 5)

No.	Name	Count	Type	Full Name
1	5GP	2	Ligand/Ion	GUANOSINE-5'-MONOPHOSPHATE
2	K	-1	Ligand/Ion	POTASSIUM ION
3	SO4	3	Ligand/Ion	SULFATE ION

Asymmetric Unit (11, 11)

No.	Name	Evidence	Residues	Description
01	AC1	SOFTWARE	GLY C:16 , VAL C:17 , GLY C:18 , LYS C:19 , GLY C:20 , 5GP C:1200 , HOH C:2127 , HOH C:2128 , HOH C:2129	BINDING SITE FOR RESIDUE SO4 C1198
02	AC2	SOFTWARE	GLY B:16 , VAL B:17 , GLY B:18 , LYS B:19 , GLY B:20 , 5GP B:1208 , HOH B:2110 , HOH B:2111	BINDING SITE FOR RESIDUE SO4 B1206
03	AC3	SOFTWARE	GLY D:16 , VAL D:17 , GLY D:18 , LYS D:19 , GLY D:20 , 5GP D:1210 , HOH D:2126 , HOH D:2127 , HOH D:2135	BINDING SITE FOR RESIDUE SO4 D1207
04	AC4	SOFTWARE	PRO A:14 , GLY A:16 , VAL A:17 , GLY A:18 , LYS A:19 , GLY A:20 , HOH A:2095	BINDING SITE FOR RESIDUE SO4 A1198
05	AC5	SOFTWARE	ARG D:43 , GLN D:44 , ASN D:81 , HOH D:2128 , HOH D:2129 , HOH D:2130 , HOH D:2131 , HOH D:2132	BINDING SITE FOR RESIDUE SO4 D1208
06	AC6	SOFTWARE	TYR B:36 , SER B:39 , GLU B:103 , 5GP B:1208 , HOH B:2029 , HOH B:2030 , HOH B:2083	BINDING SITE FOR RESIDUE K B1207
07	AC7	SOFTWARE	TYR C:36 , SER C:39 , GLU C:103 , 5GP C:1200 , HOH C:2034 , HOH C:2054	BINDING SITE FOR RESIDUE K C1199
08	AC8	SOFTWARE	TYR D:36 , SER D:39 , GLU D:103 , 5GP D:1210 , HOH D:2028	BINDING SITE FOR RESIDUE K D1209
09	AC9	SOFTWARE	LYS C:19 , SER C:39 , ARG C:43 , ARG C:46 , TYR C:55 , GLU C:74 , ALA C:76 , TYR C:78 , TYR C:83 , GLY C:84 , THR C:85 , GLU C:103 , ILE C:104 , GLU C:105 , GLY C:108 , SO4 C:1198 , K C:1199 , HOH C:2044 , HOH C:2127 , HOH C:2129 , HOH C:2130	BINDING SITE FOR RESIDUE 5GP C1200
10	BC1	SOFTWARE	LYS D:19 , SER D:39 , ARG D:43 , TYR D:55 , GLU D:74 , TYR D:78 , TYR D:83 , GLY D:84 , THR D:85 , GLU D:103 , ILE D:104 , GLU D:105 , GLY D:108 , SO4 D:1207 , K D:1209 , HOH D:2127 , HOH D:2133 , HOH D:2134 , HOH D:2135	BINDING SITE FOR RESIDUE 5GP D1210
11	BC2	SOFTWARE	LYS B:19 , SER B:39 , ARG B:43 , TYR B:55 , GLU B:74 , ALA B:76 , TYR B:78 , TYR B:83 , GLY B:84 , THR B:85 , GLU B:103 , ILE B:104 , GLU B:105 , GLY B:108 , SO4 B:1206 , K B:1207 , HOH B:2039 , HOH B:2111	BINDING SITE FOR RESIDUE 5GP B1208

Asymmetric Unit

No.	Residues
1	A:182	-	B:182
2	C:182	-	D:182

(no "Cis Peptide Bond" information available for 2J41)

(no "SAP(SNP)/Variant" information available for 2J41)

Asymmetric Unit (2, 8)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GUANYLATE_KINASE_2	PS50052	Guanylate kinase-like domain profile.	KGUA_STAAC	6-185	4	A:6-185 B:6-185 C:6-185 D:6-185
2	GUANYLATE_KINASE_1	PS00856	Guanylate kinase-like signature.	KGUA_STAAC	41-58	4	A:41-58 B:41-58 C:41-58 D:41-58

Biological Unit 1 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GUANYLATE_KINASE_2	PS50052	Guanylate kinase-like domain profile.	KGUA_STAAC	6-185	2	A:6-185 B:6-185 - -
2	GUANYLATE_KINASE_1	PS00856	Guanylate kinase-like signature.	KGUA_STAAC	41-58	2	A:41-58 B:41-58 - -

Biological Unit 2 (2, 4)

	PROSITE			UniProtKB		PDB
No.	ID	AC	Description	ID	Location	Count	Location
1	GUANYLATE_KINASE_2	PS50052	Guanylate kinase-like domain profile.	KGUA_STAAC	6-185	2	- - C:6-185 D:6-185
2	GUANYLATE_KINASE_1	PS00856	Guanylate kinase-like signature.	KGUA_STAAC	41-58	2	- - C:41-58 D:41-58

(no "Exon" information available for 2J41)

Asymmetric Unit

Reformat:	Number of residues per line = ('0' or empty: single-line sequence representation)
	Number of residues per labelling interval =
	UniProt sequence: complete aligned part

Show mapping:	SCOP domains	CATH domains	Pfam domains	Secondary structure (by author)
	SAPs(SNPs)	PROSITE motifs	Exons
	(details for a mapped element are shown in a popup box when the mouse pointer rests over it)

Chain A from PDB  Type:PROTEIN  Length:167
 aligned with KGUA_STAAC | Q5HGM3 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:194
                                    13        23        33        43        53        63        73        83        93       103       113       123       133       143       153       163       173       183       193    
           KGUA_STAAC     4 EKGLLIVLSGPSGVGKGTVRKRIFEDPSTSYKYSISMTTRQMREGEVDGVDYFFKTRDAFEALIKDDQFIEYAEYVGNYYGTPVQYVKDTMDEGHDVFLEIEVEGAKQVRKKFPDALFIFLAPPSLEHLRERLVGRGTESDEKIQSRINEARKEVEMMNLYDYVVVNDEVELAKNRIQCIVEAEHLKRERVEAK 197
               SCOP domains d2j41a_ A: automated matches                                                                                                                                                                       SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ....eeeee.....hhhhhhhhhhhh....ee....ee..............ee.hhhhhhhhhhh..eeeeeee..eeeeeehhhhhhhhhh..eeeee.hhhhhhhhhhhh...eeeeee...---------------------------hhhhhhhhh.eeee..hhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) --GUANYLATE_KINASE_2  PDB: A:6-185 UniProt: 6-185                                                                                                                                     ------------ PROSITE (1)
                PROSITE (2) -------------------------------------GUANYLATE_KINASE_1------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2j41 A   4 EKGLLIVLSGPSGVGKGTVRKRIFEDPSTSYKYSISMTTRQMREGEVDGVDYFFKTRDAFEALIKDDQFIEYAEYVGNYYGTPVQYVKDTMDEGHDVFLEIEVEGAKQVRKKFPDALFIFLAPPS---------------------------KEVEMMNLYDYVVVNDEVELAKNRIQCIVEAEHLKRERVEAK 197
                                    13        23        33        43        53        63        73        83        93       103       113       123    |    -         -         -  |    163       173       183       193    
                                                                                                                                                      128                         156

Chain B from PDB  Type:PROTEIN  Length:173
 aligned with KGUA_STAAC | Q5HGM3 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:201
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204 
           KGUA_STAAC     5 KGLLIVLSGPSGVGKGTVRKRIFEDPSTSYKYSISMTTRQMREGEVDGVDYFFKTRDAFEALIKDDQFIEYAEYVGNYYGTPVQYVKDTMDEGHDVFLEIEVEGAKQVRKKFPDALFIFLAPPSLEHLRERLVGRGTESDEKIQSRINEARKEVEMMNLYDYVVVNDEVELAKNRIQCIVEAEHLKRERVEAKYRKMILEA 205
               SCOP domains d2j41b_ B: automated matches                                                                                                                                                                              SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.....hhhhhhhhhh.......ee...ee..............ee.hhhhhhhhhhh..eeeeeee..eeeeeehhhhhhhhhh...eeee.hhhhhhhhhhhh...eeeeee...----------------------------.hhhhh...eeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -GUANYLATE_KINASE_2  PDB: B:6-185 UniProt: 6-185                                                                                                                                     -------------------- PROSITE (1)
                PROSITE (2) ------------------------------------GUANYLATE_KINASE_1--------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2j41 B   5 KGLLIVLSGPSGVGKGTVRKRIFEDPSTSYKYSISMTTRQMREGEVDGVDYFFKTRDAFEALIKDDQFIEYAEYVGNYYGTPVQYVKDTMDEGHDVFLEIEVEGAKQVRKKFPDALFIFLAPPS----------------------------EVEMMNLYDYVVVNDEVELAKNRIQCIVEAEHLKRERVEAKYRKMILEA 205
                                    14        24        34        44        54        64        74        84        94       104       114       124   |     -         -         -  |    164       174       184       194       204 
                                                                                                                                                     128                          157

Chain C from PDB  Type:PROTEIN  Length:174
 aligned with KGUA_STAAC | Q5HGM3 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:193
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194   
           KGUA_STAAC     5 KGLLIVLSGPSGVGKGTVRKRIFEDPSTSYKYSISMTTRQMREGEVDGVDYFFKTRDAFEALIKDDQFIEYAEYVGNYYGTPVQYVKDTMDEGHDVFLEIEVEGAKQVRKKFPDALFIFLAPPSLEHLRERLVGRGTESDEKIQSRINEARKEVEMMNLYDYVVVNDEVELAKNRIQCIVEAEHLKRERVEAK 197
               SCOP domains d2j41c_ C: automated matches                                                                                                                                                                      SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.....hhhhhhhhhhhh.....ee...ee..............ee.hhhhhhhhhhh..eeeeeee..eeeeeehhhhhhhhhh...eeee.hhhhhhhhhhhh...eeeeee...-------------------..hhhhhhhhhhhh....eeee..hhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -GUANYLATE_KINASE_2  PDB: C:6-185 UniProt: 6-185                                                                                                                                     ------------ PROSITE (1)
                PROSITE (2) ------------------------------------GUANYLATE_KINASE_1------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2j41 C   5 KGLLIVLSGPSGVGKGTVRKRIFEDPSTSYKYSISMTTRQMREGEVDGVDYFFKTRDAFEALIKDDQFIEYAEYVGNYYGTPVQYVKDTMDEGHDVFLEIEVEGAKQVRKKFPDALFIFLAPPS-------------------QSRINEARKEVEMMNLYDYVVVNDEVELAKNRIQCIVEAEHLKRERVEAK 197
                                    14        24        34        44        54        64        74        84        94       104       114       124   |     -         -   |   154       164       174       184       194   
                                                                                                                                                     128                 148

Chain D from PDB  Type:PROTEIN  Length:178
 aligned with KGUA_STAAC | Q5HGM3 from UniProtKB/Swiss-Prot  Length:207

    Alignment length:202
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204  
           KGUA_STAAC     5 KGLLIVLSGPSGVGKGTVRKRIFEDPSTSYKYSISMTTRQMREGEVDGVDYFFKTRDAFEALIKDDQFIEYAEYVGNYYGTPVQYVKDTMDEGHDVFLEIEVEGAKQVRKKFPDALFIFLAPPSLEHLRERLVGRGTESDEKIQSRINEARKEVEMMNLYDYVVVNDEVELAKNRIQCIVEAEHLKRERVEAKYRKMILEAK 206
               SCOP domains d2j41d_ D: automated matches                                                                                                                                                                               SCOP domains
               CATH domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ...eeeee.....hhhhhhhhhhhh.....ee...ee..............ee.hhhhhhhhhhh..eeeeeee..eeeeeehhhhhhhhhh...eeee.hhhhhhhhhhhh...eeeeee...------------------------..hhhhhhhh...eeee..hhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                PROSITE (1) -GUANYLATE_KINASE_2  PDB: D:6-185 UniProt: 6-185                                                                                                                                     --------------------- PROSITE (1)
                PROSITE (2) ------------------------------------GUANYLATE_KINASE_1---------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE (2)
                 Transcript ---------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2j41 D   5 KGLLIVLSGPSGVGKGTVRKRIFEDPSTSYKYSISMTTRQMREGEVDGVDYFFKTRDAFEALIKDDQFIEYAEYVGNYYGTPVQYVKDTMDEGHDVFLEIEVEGAKQVRKKFPDALFIFLAPPS------------------------EARKEVEMMNLYDYVVVNDEVELAKNRIQCIVEAEHLKRERVEAKYRKMILEAK 206
                                    14        24        34        44        54        64        74        84        94       104       114       124   |     -         -       154       164       174       184       194       204  
                                                                                                                                                     128                      153

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	extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '\|'

Asymmetric Unit

Classes(

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Folds(

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Protein Domains( (-)

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Organisms( (-)

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Class: Alpha and beta proteins (a/b) (23833)

Fold: P-loop containing nucleoside triphosphate hydrolases (2083)

Superfamily: P-loop containing nucleoside triphosphate hydrolases (2083)

Family: automated matches (303)

Protein domain: automated matches (303)

Staphylococcus aureus [TaxId: 1280] (4)

1a	d2j41a_	A:
1b	d2j41b_	B:
1c	d2j41c_	C:
1d	d2j41d_	D:

(no "CATH Domain" information available for 2J41)

(no "Pfam Domain" information available for 2J41)

Asymmetric Unit(hide GO term definitions)

Chain A,B,C,D (KGUA_STAAC | Q5HGM3)

molecular function
	GO:0005524	ATP binding	Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator.
	GO:0004385	guanylate kinase activity	Catalysis of the reaction: ATP + GMP = ADP + GDP.
	GO:0016301	kinase activity	Catalysis of the transfer of a phosphate group, usually from ATP, to a substrate molecule.
	GO:0000166	nucleotide binding	Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose.
	GO:0016740	transferase activity	Catalysis of the transfer of a group, e.g. a methyl group, glycosyl group, acyl group, phosphorus-containing, or other groups, from one compound (generally regarded as the donor) to another compound (generally regarded as the acceptor). Transferase is the systematic name for any enzyme of EC class 2.
biological process
	GO:0046710	GDP metabolic process	The chemical reactions and pathways involving GDP, guanosine 5'-diphosphate.
	GO:0046037	GMP metabolic process	The chemical reactions and pathways involving GMP, guanosine monophosphate.
	GO:0016310	phosphorylation	The process of introducing a phosphate group into a molecule, usually with the formation of a phosphoric ester, a phosphoric anhydride or a phosphoric amide.
	GO:0006163	purine nucleotide metabolic process	The chemical reactions and pathways involving a purine nucleotide, a compound consisting of nucleoside (a purine base linked to a deoxyribose or ribose sugar) esterified with a phosphate group at either the 3' or 5'-hydroxyl group of the sugar.
cellular component
	GO:0005737	cytoplasm	All of the contents of a cell excluding the plasma membrane and nucleus, but including other subcellular structures.

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	Cis Peptide Bonds
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	2j41
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Description

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Ligands, Modified Residues, Ions (3, 11)

Sites (11, 11)

SS Bonds (2, 2)

Cis Peptide Bonds (0, 0)

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